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Sample GSM706171 Query DataSets for GSM706171
Status Public on Jul 15, 2011
Title trophectoderm TE_5
Sample type RNA
 
Source name Human mural trophectoderm_tropho_5
Organism Homo sapiens
Characteristics tissue: mural trophectoderm
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy micro kits (Qiagen) according to the manufacturer's instructions and quantified using a NanoDrop spectrophotometer.
Label Biotin
Label protocol Complementary RNA (cRNA) was prepared according to the manufacturer’s (Affymetrix) protocol ‘small sample protocol II’, starting from 100 ng total RNA.
 
Hybridization protocol Following fragmentation, cRNA was hybridized for 16 hr at 45C on the GeneChip Human U133 plus 2.0 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
Description Human mural trophectoderm was mechanically separated from 5 days blastocyst and lysed for RNA extraction.
Data processing Data were analyzed with the GCOS 1.2 software (Affymetrix), using the default analysis settings and global scaling as normalization method, with a trimmed mean target intensity value (TGT) of each array arbitrarily set to 100.
 
Submission date Apr 09, 2011
Last update date Oct 18, 2011
Contact name Qiang BAI
E-mail(s) qiang.bai@inserm.fr
Phone +33 (0)4 67 41 52 08
Organization name PhyMedExp INSERM U1046
Lab Maladies respiratoires et environnement
Street address 371 Avenue du Doyen Gaston Giraud
City Montpellier
ZIP/Postal code 34295
Country France
 
Platform ID GPL570
Series (1)
GSE28504 Human mural trophectoderm
Relations
Reanalyzed by GSE33025

Data table header descriptions
ID_REF
VALUE MAS5 (GCOS, Affymetrix) signal value
ABS_CALL MAS5 (GCOS, Affymetrix) presence call
DETECTION P-VALUE MAS5 (GCOS, Affymetrix) presence call p-value

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 8532.01 P 4.42873e-05
AFFX-BioB-M_at 12260.7 P 4.42873e-05
AFFX-BioB-3_at 7213.89 P 4.42873e-05
AFFX-BioC-5_at 17915.1 P 4.42873e-05
AFFX-BioC-3_at 27370.9 P 4.42873e-05
AFFX-BioDn-5_at 51409.5 P 4.42873e-05
AFFX-BioDn-3_at 64119.4 P 4.42873e-05
AFFX-CreX-5_at 233491 P 5.16732e-05
AFFX-CreX-3_at 225918 P 4.42873e-05
AFFX-DapX-5_at 576.825 P 0.000169227
AFFX-DapX-M_at 7604.41 P 4.42873e-05
AFFX-DapX-3_at 12587.3 P 4.42873e-05
AFFX-LysX-5_at 87.851 A 0.0956476
AFFX-LysX-M_at 1414.59 P 5.16732e-05
AFFX-LysX-3_at 17457.2 P 4.42873e-05
AFFX-PheX-5_at 10.4136 A 0.904333
AFFX-PheX-M_at 299.165 P 0.00179591
AFFX-PheX-3_at 14074.6 P 4.42873e-05
AFFX-ThrX-5_at 124.4 A 0.116113
AFFX-ThrX-M_at 487.21 P 0.000340305

Total number of rows: 54675

Table truncated, full table size 1591 Kbytes.




Supplementary file Size Download File type/resource
GSM706171_20091113_Tropho_5__HG_U133_Plus_2_.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM706171_20091113_Tropho_5__HG_U133_Plus_2_.mas5.CHP.gz 521.8 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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